BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy16829
(243 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I13|A Chain A, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
pdb|2I13|B Chain B, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
Length = 190
Score = 71.2 bits (173), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 43/169 (25%), Positives = 74/169 (43%), Gaps = 4/169 (2%)
Query: 61 TCVECNEDFINVNDFVSHLRGHDS-TSHVCDICLEAFPSSDDRDLHFLSHLTSDGLYQCN 119
C EC + F + H R H + C C ++F D H +H T + Y+C
Sbjct: 23 ACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTH-TGEKPYKCP 81
Query: 120 ECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHK 179
EC + +L+ H++ H C CG+ F Q + H+ P++C C K
Sbjct: 82 ECGKSFSQRANLRAHQRTHTGEKPYACPECGKSFSQLAHLRAHQRTHTGEKPYKCPECGK 141
Query: 180 IFTNKSTMWSHKKAHKPEDQIPWECEHCHKVYPNKRSYKRHKQVHLGVK 228
F+ + + +H++ H E P++C C K + + + H++ H G K
Sbjct: 142 SFSREDNLHTHQRTHTGEK--PYKCPECGKSFSRRDALNVHQRTHTGKK 188
Score = 58.2 bits (139), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 51/113 (45%), Gaps = 2/113 (1%)
Query: 116 YQCNECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCE 175
Y C EC R HL H++ H C CG+ F ++T H+ P++C
Sbjct: 22 YACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCP 81
Query: 176 ICHKIFTNKSTMWSHKKAHKPEDQIPWECEHCHKVYPNKRSYKRHKQVHLGVK 228
C K F+ ++ + +H++ H E P+ C C K + + H++ H G K
Sbjct: 82 ECGKSFSQRANLRAHQRTHTGEK--PYACPECGKSFSQLAHLRAHQRTHTGEK 132
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 30/58 (51%), Gaps = 2/58 (3%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPEDQIPWECEHCHKVYPNKRSYKRHKQVHLGVK 228
P+ C C K F+ + H++ H E P++C C K + +K+ RH++ H G K
Sbjct: 21 PYACPECGKSFSRSDHLAEHQRTHTGEK--PYKCPECGKSFSDKKDLTRHQRTHTGEK 76
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 52.0 bits (123), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 44/88 (50%), Gaps = 2/88 (2%)
Query: 138 HEKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAHKPE 197
HE+ Y + C R F +++E+T H PFQC IC + F+ + +H + H E
Sbjct: 1 HERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGE 60
Query: 198 DQIPWECEHCHKVYPNKRSYKRHKQVHL 225
P+ C+ C + + KRH ++HL
Sbjct: 61 K--PFACDICGRKFARSDERKRHTKIHL 86
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 32/81 (39%), Gaps = 2/81 (2%)
Query: 116 YQC--NECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQ 173
Y C C+ R L H +IH C +C R F +++ +T H PF
Sbjct: 5 YACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFA 64
Query: 174 CEICHKIFTNKSTMWSHKKAH 194
C+IC + F H K H
Sbjct: 65 CDICGRKFARSDERKRHTKIH 85
Score = 31.6 bits (70), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 60 LTCVECNEDFINVNDFVSHLRGHDSTS-HVCDICLEAFPSSDDRDLHFLSHL 110
C C +F + +H+R H CDIC F SD+R H HL
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHL 86
>pdb|1AAY|A Chain A, Zif268 Zinc Finger-Dna Complex
pdb|1A1L|A Chain A, Zif268 Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 50.8 bits (120), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 44/90 (48%), Gaps = 2/90 (2%)
Query: 139 EKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAHKPED 198
E+ Y + C R F +++E+T H PFQC IC + F+ + +H + H E
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEK 61
Query: 199 QIPWECEHCHKVYPNKRSYKRHKQVHLGVK 228
P+ C+ C + + KRH ++HL K
Sbjct: 62 --PFACDICGRKFARSDERKRHTKIHLRQK 89
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 32/81 (39%), Gaps = 2/81 (2%)
Query: 116 YQC--NECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQ 173
Y C C+ R L H +IH C +C R F +++ +T H PF
Sbjct: 5 YACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFA 64
Query: 174 CEICHKIFTNKSTMWSHKKAH 194
C+IC + F H K H
Sbjct: 65 CDICGRKFARSDERKRHTKIH 85
Score = 31.6 bits (70), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 60 LTCVECNEDFINVNDFVSHLRGHDSTS-HVCDICLEAFPSSDDRDLHFLSHL 110
C C +F + +H+R H CDIC F SD+R H HL
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHL 86
>pdb|1P47|A Chain A, Crystal Structure Of Tandem Zif268 Molecules Complexed To
Dna
pdb|1P47|B Chain B, Crystal Structure Of Tandem Zif268 Molecules Complexed To
Dna
Length = 87
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 43/87 (49%), Gaps = 2/87 (2%)
Query: 139 EKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAHKPED 198
E+ Y + C R F +++E+T H PFQC IC + F+ + +H + H E
Sbjct: 1 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEK 60
Query: 199 QIPWECEHCHKVYPNKRSYKRHKQVHL 225
P+ C+ C + + KRH ++HL
Sbjct: 61 --PFACDICGRKFARSDERKRHTKIHL 85
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 32/81 (39%), Gaps = 2/81 (2%)
Query: 116 YQC--NECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQ 173
Y C C+ R L H +IH C +C R F +++ +T H PF
Sbjct: 4 YACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFA 63
Query: 174 CEICHKIFTNKSTMWSHKKAH 194
C+IC + F H K H
Sbjct: 64 CDICGRKFARSDERKRHTKIH 84
Score = 31.6 bits (70), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 60 LTCVECNEDFINVNDFVSHLRGHDSTS-HVCDICLEAFPSSDDRDLHFLSHL 110
C C +F + +H+R H CDIC F SD+R H HL
Sbjct: 34 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHL 85
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 42/90 (46%), Gaps = 2/90 (2%)
Query: 139 EKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAHKPED 198
E+ Y + C R F Q+ +T H PFQC IC + F+ + +H + H E
Sbjct: 2 ERPYACPVESCDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEK 61
Query: 199 QIPWECEHCHKVYPNKRSYKRHKQVHLGVK 228
P+ C+ C + + KRH ++HL K
Sbjct: 62 --PFACDICGRKFARSDERKRHTKIHLRQK 89
Score = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 27/64 (42%)
Query: 131 LKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSH 190
L H +IH C +C R F +++ +T H PF C+IC + F H
Sbjct: 22 LTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRH 81
Query: 191 KKAH 194
K H
Sbjct: 82 TKIH 85
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 29/71 (40%), Gaps = 1/71 (1%)
Query: 92 CLEAFPSSDDRDLHFLSHLTSDGLYQCNECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGR 151
C F S H H T +QC C R HL TH + H CD+CGR
Sbjct: 12 CDRRFSQSGSLTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 152 GFHQNNEVTLH 162
F +++E H
Sbjct: 71 KFARSDERKRH 81
Score = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 60 LTCVECNEDFINVNDFVSHLRGHDSTS-HVCDICLEAFPSSDDRDLHFLSHL 110
C C +F + +H+R H CDIC F SD+R H HL
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHL 86
>pdb|1JK1|A Chain A, Zif268 D20a Mutant Bound To Wt Dna Site
pdb|1JK2|A Chain A, Zif268 D20a Mutant Bound To The Gct Dna Site
Length = 90
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 43/90 (47%), Gaps = 2/90 (2%)
Query: 139 EKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAHKPED 198
E+ Y + C R F ++ E+T H PFQC IC + F+ + +H + H E
Sbjct: 2 ERPYACPVESCDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEK 61
Query: 199 QIPWECEHCHKVYPNKRSYKRHKQVHLGVK 228
P+ C+ C + + KRH ++HL K
Sbjct: 62 --PFACDICGRKFARSDERKRHTKIHLRQK 89
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 32/81 (39%), Gaps = 2/81 (2%)
Query: 116 YQC--NECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQ 173
Y C C+ R L H +IH C +C R F +++ +T H PF
Sbjct: 5 YACPVESCDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFA 64
Query: 174 CEICHKIFTNKSTMWSHKKAH 194
C+IC + F H K H
Sbjct: 65 CDICGRKFARSDERKRHTKIH 85
Score = 32.0 bits (71), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 60 LTCVECNEDFINVNDFVSHLRGHDSTS-HVCDICLEAFPSSDDRDLHFLSHL 110
C C +F + +H+R H CDIC F SD+R H HL
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHL 86
>pdb|2EE8|A Chain A, Solution Structure Of Three Zf-C2h2 Domains From Mouse
Protein Odd-Skipped-Related 2 Splicing Isoform 2
Length = 106
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 42/80 (52%), Gaps = 2/80 (2%)
Query: 146 CDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAHKPEDQIPWECE 205
C CGR F ++ + +H+ + P+ C+ICHK F + + H+ H E P++C+
Sbjct: 20 CKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDHRYIHSKEK--PFKCQ 77
Query: 206 HCHKVYPNKRSYKRHKQVHL 225
C K + R+ HK +H+
Sbjct: 78 ECGKGFCQSRTLAVHKTLHM 97
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 38/77 (49%), Gaps = 1/77 (1%)
Query: 88 VCDICLEAFPSSDDRDLHFLSHLTSDGLYQCNECEFVGKRLTHLKTHKKIHEKVYGVYCD 147
+C C F S + +H +H T + Y C+ C +R HL+ H+ IH K C
Sbjct: 19 ICKFCGRHFTKSYNLLIHERTH-TDERPYTCDICHKAFRRQDHLRDHRYIHSKEKPFKCQ 77
Query: 148 VCGRGFHQNNEVTLHKI 164
CG+GF Q+ + +HK
Sbjct: 78 ECGKGFCQSRTLAVHKT 94
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 36/77 (46%), Gaps = 3/77 (3%)
Query: 121 CEFVGKRLT---HLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEIC 177
C+F G+ T +L H++ H CD+C + F + + + H+ PF+C+ C
Sbjct: 20 CKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDHRYIHSKEKPFKCQEC 79
Query: 178 HKIFTNKSTMWSHKKAH 194
K F T+ HK H
Sbjct: 80 GKGFCQSRTLAVHKTLH 96
Score = 32.7 bits (73), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 6/67 (8%)
Query: 172 FQCEICHKIFTNKSTMWSHKKAHKPEDQIPWECEHCHKVYPNKRSYKRHKQVHLGVK--- 228
F C+ C + FT + H++ H D+ P+ C+ CHK + + + H+ +H K
Sbjct: 18 FICKFCGRHFTKSYNLLIHERTH--TDERPYTCDICHKAFRRQDHLRDHRYIHSKEKPFK 75
Query: 229 -HECEGG 234
EC G
Sbjct: 76 CQECGKG 82
>pdb|1A1I|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
pdb|1A1J|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt Site)
pdb|1A1K|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc Site)
Length = 90
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 43/90 (47%), Gaps = 2/90 (2%)
Query: 139 EKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAHKPED 198
E+ Y + C R F ++ ++T H PFQC IC + F+ + +H + H E
Sbjct: 2 ERPYACPVESCDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEK 61
Query: 199 QIPWECEHCHKVYPNKRSYKRHKQVHLGVK 228
P+ C+ C + + KRH ++HL K
Sbjct: 62 --PFACDICGRKFARSDERKRHTKIHLRQK 89
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 32/81 (39%), Gaps = 2/81 (2%)
Query: 116 YQC--NECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQ 173
Y C C+ R L H +IH C +C R F +++ +T H PF
Sbjct: 5 YACPVESCDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFA 64
Query: 174 CEICHKIFTNKSTMWSHKKAH 194
C+IC + F H K H
Sbjct: 65 CDICGRKFARSDERKRHTKIH 85
Score = 31.6 bits (70), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 60 LTCVECNEDFINVNDFVSHLRGHDSTS-HVCDICLEAFPSSDDRDLHFLSHL 110
C C +F + +H+R H CDIC F SD+R H HL
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHL 86
>pdb|1G2F|C Chain C, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX
(Tatazf;clone #6)
pdb|1G2F|F Chain F, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX
(Tatazf;clone #6)
Length = 90
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 43/90 (47%), Gaps = 2/90 (2%)
Query: 139 EKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAHKPED 198
E+ Y + C R F Q + H PFQC IC + F+ ++++ +H + H E
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEK 61
Query: 199 QIPWECEHCHKVYPNKRSYKRHKQVHLGVK 228
P+ C+ C + + + RH ++HL K
Sbjct: 62 --PFACDICGRKFATLHTRTRHTKIHLRQK 89
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 33/81 (40%), Gaps = 2/81 (2%)
Query: 116 YQC--NECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQ 173
Y C C+ + T+L TH +IH C +C R F Q + H PF
Sbjct: 5 YACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEKPFA 64
Query: 174 CEICHKIFTNKSTMWSHKKAH 194
C+IC + F T H K H
Sbjct: 65 CDICGRKFATLHTRTRHTKIH 85
>pdb|1A1F|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc Site)
pdb|1A1G|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt Site)
Length = 90
Score = 48.1 bits (113), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 42/90 (46%), Gaps = 2/90 (2%)
Query: 139 EKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAHKPED 198
E+ Y + C R F ++ +T H PFQC IC + F+ + +H + H E
Sbjct: 2 ERPYACPVESCDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEK 61
Query: 199 QIPWECEHCHKVYPNKRSYKRHKQVHLGVK 228
P+ C+ C + + KRH ++HL K
Sbjct: 62 --PFACDICGRKFARSDERKRHTKIHLRQK 89
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 30/71 (42%), Gaps = 1/71 (1%)
Query: 92 CLEAFPSSDDRDLHFLSHLTSDGLYQCNECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGR 151
C F S + H H T +QC C R HL TH + H CD+CGR
Sbjct: 12 CDRRFSDSSNLTRHIRIH-TGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGR 70
Query: 152 GFHQNNEVTLH 162
F +++E H
Sbjct: 71 KFARSDERKRH 81
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 29/66 (43%)
Query: 129 THLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMW 188
++L H +IH C +C R F +++ +T H PF C+IC + F
Sbjct: 20 SNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERK 79
Query: 189 SHKKAH 194
H K H
Sbjct: 80 RHTKIH 85
Score = 31.6 bits (70), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 60 LTCVECNEDFINVNDFVSHLRGHDSTS-HVCDICLEAFPSSDDRDLHFLSHL 110
C C +F + +H+R H CDIC F SD+R H HL
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTKIHL 86
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 47.8 bits (112), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 37/79 (46%)
Query: 116 YQCNECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCE 175
+ C C KR + L TH IH C CG+ FHQ +++ H P +C+
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHKCQ 61
Query: 176 ICHKIFTNKSTMWSHKKAH 194
+C K F+ S + +H + H
Sbjct: 62 VCGKAFSQSSNLITHSRKH 80
Score = 43.9 bits (102), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 39/81 (48%), Gaps = 2/81 (2%)
Query: 146 CDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAHKPEDQIPWECE 205
C +CG+ F +++ ++ H + + P+ C+ C K F KS M H H E P +C+
Sbjct: 4 CKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEK--PHKCQ 61
Query: 206 HCHKVYPNKRSYKRHKQVHLG 226
C K + + H + H G
Sbjct: 62 VCGKAFSQSSNLITHSRKHTG 82
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 34/62 (54%), Gaps = 3/62 (4%)
Query: 172 FQCEICHKIFTNKSTMWSHKKAHKPEDQIPWECEHCHKVYPNKRSYKRHKQVHLGVK-HE 230
F C+IC K F ST+ +H H D P+ C++C K + K K+H +H G K H+
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLIH--SDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHK 59
Query: 231 CE 232
C+
Sbjct: 60 CQ 61
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 38/85 (44%), Gaps = 1/85 (1%)
Query: 143 GVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAHKPEDQIPW 202
GV C++CG+ F + HK+ P+ C +C F K M H ++H P+
Sbjct: 7 GVACEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPY 66
Query: 203 ECEHCHKVYPNKRSYKRH-KQVHLG 226
C+ C K + H KQVH G
Sbjct: 67 ICQSCGKGFSRPDHLNGHIKQVHSG 91
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 35/78 (44%), Gaps = 4/78 (5%)
Query: 118 CNECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAF---PFQC 174
C C + + + HL HK H C VCG F + + ++ H ++ H+ P+ C
Sbjct: 10 CEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYH-VRSHDGSVGKPYIC 68
Query: 175 EICHKIFTNKSTMWSHKK 192
+ C K F+ + H K
Sbjct: 69 QSCGKGFSRPDHLNGHIK 86
>pdb|1G2D|C Chain C, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX (CLONE
#2)
pdb|1G2D|F Chain F, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX (CLONE
#2)
Length = 90
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 40/90 (44%), Gaps = 2/90 (2%)
Query: 139 EKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAHKPED 198
E+ Y + C R F Q + H PFQC IC + F+ + + H + H E
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGEK 61
Query: 199 QIPWECEHCHKVYPNKRSYKRHKQVHLGVK 228
P+ C+ C + + + RH ++HL K
Sbjct: 62 --PFACDICGRKFATLHTRDRHTKIHLRQK 89
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 34/81 (41%), Gaps = 2/81 (2%)
Query: 116 YQC--NECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQ 173
Y C C+ + T+L TH +IH C +C R F Q+ + H PF
Sbjct: 5 YACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGEKPFA 64
Query: 174 CEICHKIFTNKSTMWSHKKAH 194
C+IC + F T H K H
Sbjct: 65 CDICGRKFATLHTRDRHTKIH 85
>pdb|1MEY|C Chain C, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
pdb|1MEY|F Chain F, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
pdb|1MEY|G Chain G, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
Length = 87
Score = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 42/90 (46%), Gaps = 4/90 (4%)
Query: 139 EKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAHKPED 198
EK Y C CG+ F Q++ + H+ P++C C K F+ S + H++ H E
Sbjct: 2 EKPYK--CPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEK 59
Query: 199 QIPWECEHCHKVYPNKRSYKRHKQVHLGVK 228
P++C C K + RH++ H K
Sbjct: 60 --PYKCPECGKSFSRSDHLSRHQRTHQNKK 87
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 40/80 (50%)
Query: 116 YQCNECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCE 175
Y+C EC + ++L+ H++ H C CG+ F Q++++ H+ P++C
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEKPYKCP 64
Query: 176 ICHKIFTNKSTMWSHKKAHK 195
C K F+ + H++ H+
Sbjct: 65 ECGKSFSRSDHLSRHQRTHQ 84
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 36/79 (45%), Gaps = 2/79 (2%)
Query: 62 CVECNEDFINVNDFVSHLRGHDS-TSHVCDICLEAFPSSDDRDLHFLSHLTSDGLYQCNE 120
C EC + F ++ H R H + C C ++F S D H +H T + Y+C E
Sbjct: 7 CPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTH-TGEKPYKCPE 65
Query: 121 CEFVGKRLTHLKTHKKIHE 139
C R HL H++ H+
Sbjct: 66 CGKSFSRSDHLSRHQRTHQ 84
Score = 36.2 bits (82), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 38/80 (47%), Gaps = 1/80 (1%)
Query: 89 CDICLEAFPSSDDRDLHFLSHLTSDGLYQCNECEFVGKRLTHLKTHKKIHEKVYGVYCDV 148
C C ++F S + H +H T + Y+C EC + + L+ H++ H C
Sbjct: 7 CPECGKSFSQSSNLQKHQRTH-TGEKPYKCPECGKSFSQSSDLQKHQRTHTGEKPYKCPE 65
Query: 149 CGRGFHQNNEVTLHKIKEHN 168
CG+ F +++ ++ H+ N
Sbjct: 66 CGKSFSRSDHLSRHQRTHQN 85
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 121 CEFVGKRLTHLKTHKKIH--EKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICH 178
C V + +HLK H + H EK Y + C F +++E+T H K A PFQC +C+
Sbjct: 23 CTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAKPFQCGVCN 82
Query: 179 KIFTNKSTMWSHKKAHK 195
+ F+ + H K H+
Sbjct: 83 RSFSRSDHLALHMKRHQ 99
Score = 33.5 bits (75), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 36/86 (41%), Gaps = 5/86 (5%)
Query: 87 HVCDI--CLEAFPSSDDRDLHFLSHLTSDGLYQCN--ECEFVGKRLTHLKTHKKIHEKVY 142
H CD C + + S H +H T + Y+C C++ R L H + H
Sbjct: 16 HYCDYPGCTKVYTKSSHLKAHLRTH-TGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAK 74
Query: 143 GVYCDVCGRGFHQNNEVTLHKIKEHN 168
C VC R F +++ + LH + N
Sbjct: 75 PFQCGVCNRSFSRSDHLALHMKRHQN 100
>pdb|2JP9|A Chain A, Structure Of The Wilms Tumor Suppressor Protein Zinc
Finger Domain Bound To Dna
pdb|2JPA|A Chain A, Structure Of The Wilms Tumor Suppressor Protein Zinc
Finger Domain Bound To Dna
pdb|2PRT|A Chain A, Structure Of The Wilms Tumor Suppressor Protein Zinc
Finger Domain Bound To Dna
Length = 119
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 28/109 (25%), Positives = 48/109 (44%), Gaps = 5/109 (4%)
Query: 118 CNECEFVGKRLTHLKTHKKIHEKVYGVYCDV--CGRGFHQNNEVTLHKIKEHNAFPFQCE 175
CN+ F +L+HL+ H + H CD C R F +++++ H+ + PFQC+
Sbjct: 14 CNKRYF---KLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHTGVKPFQCK 70
Query: 176 ICHKIFTNKSTMWSHKKAHKPEDQIPWECEHCHKVYPNKRSYKRHKQVH 224
C + F+ + +H + H E C K + RH +H
Sbjct: 71 TCQRKFSRSDHLKTHTRTHTGEKPFSCRWPSCQKKFARSDELVRHHNMH 119
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 46/111 (41%), Gaps = 6/111 (5%)
Query: 57 PLLLTCVECNEDFINVNDFVSHLRGHDS-TSHVCDI--CLEAFPSSDDRDLHFLSHLTSD 113
P + CN+ + ++ H R H + CD C F SD H H T
Sbjct: 6 PFMCAYPGCNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRH-TGV 64
Query: 114 GLYQCNECEFVGKRLTHLKTHKKIH--EKVYGVYCDVCGRGFHQNNEVTLH 162
+QC C+ R HLKTH + H EK + C + F +++E+ H
Sbjct: 65 KPFQCKTCQRKFSRSDHLKTHTRTHTGEKPFSCRWPSCQKKFARSDELVRH 115
Score = 30.8 bits (68), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 18/82 (21%), Positives = 37/82 (45%), Gaps = 4/82 (4%)
Query: 149 CGRGFHQNNEVTLHKIKEHNAFPFQCEI--CHKIFTNKSTMWSHKKAHKPEDQIPWECEH 206
C + + + + + +H K P+QC+ C + F+ + H++ H P++C+
Sbjct: 14 CNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRH--TGVKPFQCKT 71
Query: 207 CHKVYPNKRSYKRHKQVHLGVK 228
C + + K H + H G K
Sbjct: 72 CQRKFSRSDHLKTHTRTHTGEK 93
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 90
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 40/81 (49%), Gaps = 7/81 (8%)
Query: 121 CEFVG-----KRLTHLKTHKKIH--EKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQ 173
C++ G + +HLK H + H EK Y D CG F +++E+T H K PFQ
Sbjct: 9 CDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQ 68
Query: 174 CEICHKIFTNKSTMWSHKKAH 194
C+ C + F+ + H K H
Sbjct: 69 CQKCDRAFSRSDHLALHMKRH 89
Score = 31.2 bits (69), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 33/79 (41%), Gaps = 4/79 (5%)
Query: 63 VECNEDFINVNDFVSHLRGHDSTS-HVCDI--CLEAFPSSDDRDLHFLSHLTSDGLYQCN 119
C + + + +HLR H + CD C F SD+ H+ H T +QC
Sbjct: 12 AGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKH-TGHRPFQCQ 70
Query: 120 ECEFVGKRLTHLKTHKKIH 138
+C+ R HL H K H
Sbjct: 71 KCDRAFSRSDHLALHMKRH 89
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 89
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 40/81 (49%), Gaps = 7/81 (8%)
Query: 121 CEFVG-----KRLTHLKTHKKIH--EKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQ 173
C++ G + +HLK H + H EK Y D CG F +++E+T H K PFQ
Sbjct: 8 CDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQ 67
Query: 174 CEICHKIFTNKSTMWSHKKAH 194
C+ C + F+ + H K H
Sbjct: 68 CQKCDRAFSRSDHLALHMKRH 88
Score = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 33/79 (41%), Gaps = 4/79 (5%)
Query: 63 VECNEDFINVNDFVSHLRGHDSTS-HVCDI--CLEAFPSSDDRDLHFLSHLTSDGLYQCN 119
C + + + +HLR H + CD C F SD+ H+ H T +QC
Sbjct: 11 AGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKH-TGHRPFQCQ 69
Query: 120 ECEFVGKRLTHLKTHKKIH 138
+C+ R HL H K H
Sbjct: 70 KCDRAFSRSDHLALHMKRH 88
>pdb|1UBD|C Chain C, Co-Crystal Structure Of Human Yy1 Zinc Finger Domain Bound
To The Adeno-Associated Virus P5 Initiator Element
Length = 124
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 35/113 (30%), Positives = 51/113 (45%), Gaps = 9/113 (7%)
Query: 57 PLLLTCVE--CNEDFINVNDFVSHLRGHDSTSHVCDICLEAFPSSDDRDLHFLSHLTSDG 114
P + C C + F + + HL H HVC C +AF S H L H T +
Sbjct: 3 PRTIACPHKGCTKMFRDNSAMRKHLHTHGPRVHVCAECGKAFVESSKLKRHQLVH-TGEK 61
Query: 115 LYQCNECEFVGKRLT---HLKTHKKIH--EKVYGVYCDVCGRGFHQNNEVTLH 162
+QC E GKR + +L+TH +IH ++ Y D C + F Q+ + H
Sbjct: 62 PFQCTF-EGCGKRFSLDFNLRTHVRIHTGDRPYVCPFDGCNKKFAQSTNLKSH 113
Score = 32.0 bits (71), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 38/85 (44%), Gaps = 2/85 (2%)
Query: 146 CDVCGRGFHQNNEVTLHKIKEHNAFPFQC--EICHKIFTNKSTMWSHKKAHKPEDQIPWE 203
C CG+ F +++++ H++ PFQC E C K F+ + +H + H +
Sbjct: 37 CAECGKAFVESSKLKRHQLVHTGEKPFQCTFEGCGKRFSLDFNLRTHVRIHTGDRPYVCP 96
Query: 204 CEHCHKVYPNKRSYKRHKQVHLGVK 228
+ C+K + + K H H K
Sbjct: 97 FDGCNKKFAQSTNLKSHILTHAKAK 121
>pdb|2DMD|A Chain A, Solution Structure Of The N-Terminal C2h2 Type
Zinc-Binding Domain Of The Zinc Finger Protein 64,
Isoforms 1 And 2
Length = 96
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 35/83 (42%)
Query: 112 SDGLYQCNECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFP 171
S G ++C C R LKTH + H V C C ++ + H + P
Sbjct: 5 SSGPHKCEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSDERP 64
Query: 172 FQCEICHKIFTNKSTMWSHKKAH 194
F+C+IC N S + H ++H
Sbjct: 65 FKCQICPYASRNSSQLTVHLRSH 87
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 38/81 (46%), Gaps = 2/81 (2%)
Query: 146 CDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAHKPEDQIPWECE 205
C+VCG+ F + +++ H P++C+ C + S++ H + H D+ P++C+
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIH--SDERPFKCQ 68
Query: 206 HCHKVYPNKRSYKRHKQVHLG 226
C N H + H G
Sbjct: 69 ICPYASRNSSQLTVHLRSHTG 89
Score = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 34/80 (42%), Gaps = 1/80 (1%)
Query: 83 DSTSHVCDICLEAFPSSDDRDLHFLSHLTSDGLYQCNECEFVGKRLTHLKTHKKIHEKVY 142
S H C++C + F D H H T Y+C C++ + L H +IH
Sbjct: 5 SSGPHKCEVCGKCFSRKDKLKTHMRCH-TGVKPYKCKTCDYAAADSSSLNKHLRIHSDER 63
Query: 143 GVYCDVCGRGFHQNNEVTLH 162
C +C ++++T+H
Sbjct: 64 PFKCQICPYASRNSSQLTVH 83
>pdb|1LLM|C Chain C, Crystal Structure Of A Zif23-Gcn4 Chimera Bound To Dna
pdb|1LLM|D Chain D, Crystal Structure Of A Zif23-Gcn4 Chimera Bound To Dna
Length = 88
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPEDQIPWECEHCHKVYPNKRSYKRHKQVH 224
PFQC IC + F+ + +H + H E P+ C+ C + + KRH+ +
Sbjct: 3 PFQCRICMRNFSRSDHLTTHIRTHTGEK--PFACDICGRKFARSDERKRHRDIQ 54
Score = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 26/52 (50%)
Query: 116 YQCNECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEH 167
+QC C R HL TH + H CD+CGR F +++E H+ +H
Sbjct: 4 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHRDIQH 55
Score = 31.2 bits (69), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 21/46 (45%)
Query: 146 CDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHK 191
C +C R F +++ +T H PF C+IC + F H+
Sbjct: 6 CRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHR 51
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 1/45 (2%)
Query: 62 CVECNEDFINVNDFVSHLRGHDSTS-HVCDICLEAFPSSDDRDLH 105
C C +F + +H+R H CDIC F SD+R H
Sbjct: 6 CRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRH 50
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domain
Of Zinc Finger Protein 435
Length = 77
Score = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 27/49 (55%)
Query: 146 CDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAH 194
CD CG+ F +++++ H+ P++C+ C K F +S + H + H
Sbjct: 21 CDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGHHRVH 69
Score = 32.7 bits (73), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 172 FQCEICHKIFTNKSTMWSHKKAHKPEDQIPWECEHCHKVYPNKRSYKRHKQVHLG 226
++C+ C K F++ S + H++ H E P++C+ C K + + H +VH G
Sbjct: 19 YKCDECGKSFSHSSDLSKHRRTHTGEK--PYKCDECGKAFIQRSHLIGHHRVHTG 71
Score = 31.2 bits (69), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 89 CDICLEAFPSSDDRDLHFLSHLTSDGLYQCNECEFVGKRLTHLKTHKKIH 138
CD C ++F S D H +H T + Y+C+EC + +HL H ++H
Sbjct: 21 CDECGKSFSHSSDLSKHRRTH-TGEKPYKCDECGKAFIQRSHLIGHHRVH 69
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 6/50 (12%)
Query: 116 YQCNECEFVGKRLTH---LKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLH 162
Y+C+EC GK +H L H++ H CD CG+ F Q + + H
Sbjct: 19 YKCDEC---GKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGH 65
Score = 26.9 bits (58), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 62 CVECNEDFINVNDFVSHLRGHDSTS-HVCDICLEAF 96
C EC + F + +D H R H + CD C +AF
Sbjct: 21 CDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAF 56
>pdb|1F2I|G Chain G, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|H Chain H, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|I Chain I, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|J Chain J, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|K Chain K, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|L Chain L, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
Length = 73
Score = 35.4 bits (80), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 27/55 (49%)
Query: 140 KVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAH 194
+ Y + C R F +++E+T H PFQC IC + F+ + +H + H
Sbjct: 18 RPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTH 72
>pdb|2DLQ|A Chain A, Solution Structure Of The Tandem Four Zf-C2h2 Domain
Repeats Of Murine Gli-Kruppel Family Member Hkr3
Length = 124
Score = 35.4 bits (80), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 31/116 (26%), Positives = 50/116 (43%), Gaps = 9/116 (7%)
Query: 81 GHDSTSHV-CDICLEAFPSSDDRDLHFLSHLTSDGLYQCNECEFVGKRLTHLKTHKKIH- 138
G +S V C C + F S +H H T + ++C +C R +L H+ +
Sbjct: 1 GSSGSSGVECPTCHKKFLSKYYLKVHNRKH-TGEKPFECPKCGKCYFRKENLLEHEARNC 59
Query: 139 ----EKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSH 190
E+V+ C VC F + E+ LH + P++C C + F K + SH
Sbjct: 60 MNRSEQVF--TCSVCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSH 113
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 20/94 (21%), Positives = 41/94 (43%), Gaps = 5/94 (5%)
Query: 130 HLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKE---HNAFPFQCEICHKIFTNKST 186
+LK H + H C CG+ + + + H+ + + F C +C + F +
Sbjct: 22 YLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTCSVCQETFRRRME 81
Query: 187 MWSHKKAHKPEDQIPWECEHCHKVYPNKRSYKRH 220
+ H +H E +P++C C + + K+ + H
Sbjct: 82 LRLHMVSHTGE--MPYKCSSCSQQFMQKKDLQSH 113
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/86 (23%), Positives = 34/86 (39%), Gaps = 3/86 (3%)
Query: 143 GVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSH--KKAHKPEDQI 200
GV C C + F + +H K PF+C C K + K + H + +Q+
Sbjct: 7 GVECPTCHKKFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQV 66
Query: 201 PWECEHCHKVYPNKRSYKRHKQVHLG 226
+ C C + + + + H H G
Sbjct: 67 -FTCSVCQETFRRRMELRLHMVSHTG 91
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 35.0 bits (79), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 2/58 (3%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPEDQIPWECEHCHKVYPNKRSYKRHKQVHLGVK 228
P++C+ C F K + SHK H E P+ C C + + K H ++H G K
Sbjct: 17 PYKCDRCQASFRYKGNLASHKTVHTGEK--PYRCNICGAQFNRPANLKTHTRIHSGEK 72
Score = 31.2 bits (69), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 21/52 (40%)
Query: 146 CDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAHKPE 197
CD C F + HK P++C IC F + + +H + H E
Sbjct: 20 CDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTRIHSGE 71
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 89 CDICLEAFPSSDDRDLHFLSHLTSDGLYQCNECEFVGKRLTHLKTHKKIHE 139
CD C +F + H H T + Y+CN C R +LKTH +IH
Sbjct: 20 CDRCQASFRYKGNLASHKTVH-TGEKPYRCNICGAQFNRPANLKTHTRIHS 69
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 25/50 (50%)
Query: 113 DGLYQCNECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLH 162
D Y+C+ C+ + +L +HK +H C++CG F++ + H
Sbjct: 15 DKPYKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTH 64
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Zinc Finger Protein 24
Length = 72
Score = 34.3 bits (77), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 2/54 (3%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPEDQIPWECEHCHKVYPNKRSYKRHKQVH 224
P+ C C K F+ S + H++ H E P++C C K + H+++H
Sbjct: 14 PYGCVECGKAFSRSSILVQHQRVHTGEK--PYKCLECGKAFSQNSGLINHQRIH 65
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 30/56 (53%), Gaps = 2/56 (3%)
Query: 139 EKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAH 194
EK YG C CG+ F +++ + H+ P++C C K F+ S + +H++ H
Sbjct: 12 EKPYG--CVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQRIH 65
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 116 YQCNECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEHNAFP 171
Y C EC R + L H+++H C CG+ F QN+ + H+ + H + P
Sbjct: 15 YGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQ-RIHTSGP 69
>pdb|1TF6|A Chain A, Co-crystal Structure Of Xenopus Tfiiia Zinc Finger Domain
Bound To The 5s Ribosomal Rna Gene Internal Control
Region
pdb|1TF6|D Chain D, Co-crystal Structure Of Xenopus Tfiiia Zinc Finger Domain
Bound To The 5s Ribosomal Rna Gene Internal Control
Region
Length = 190
Score = 33.9 bits (76), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 41/145 (28%), Positives = 58/145 (40%), Gaps = 13/145 (8%)
Query: 92 CLEAFPSSDDRDLHFLSHLTSDGLYQCNE--CEFVGKRLTHLKTHKKIH--EKVYGVYCD 147
C A+ + H H T + + C E CE L HL H H EK + D
Sbjct: 20 CGAAYNKNWKLQAHLCKH-TGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTGEKNFTCDSD 78
Query: 148 VCGRGFHQNNEVTLHKIKEHN----AFPFQCEICHKIFTNKSTMWSHKKAHKPEDQIPWE 203
C F + H + HN + E C K F + + H+ +H Q+P+E
Sbjct: 79 GCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVHQFSH--TQQLPYE 136
Query: 204 CEH--CHKVYPNKRSYKRHKQVHLG 226
C H C K + KRH++VH G
Sbjct: 137 CPHEGCDKRFSLPSRLKRHEKVHAG 161
>pdb|2D9H|A Chain A, Solution Structure Of The Forth And Fifth Zf-C2h2 Domains
Of Zinc Finger Protein 692
Length = 78
Score = 33.9 bits (76), Expect = 0.095, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 4/62 (6%)
Query: 112 SDGLYQCNECEFVGKRLTHLKTHKKIHEKVYGVY---CDVCGRGFHQNNEVTLHKIKEHN 168
S GL QC C F ++ L H++ H + C+ CG+ F + + V H+ K H
Sbjct: 5 SSGL-QCEICGFTCRQKASLNWHQRKHAETVAALRFPCEFCGKRFEKPDSVAAHRSKSHP 63
Query: 169 AF 170
A
Sbjct: 64 AL 65
Score = 31.2 bits (69), Expect = 0.52, Method: Composition-based stats.
Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 3/57 (5%)
Query: 143 GVYCDVCGRGFHQNNEVTLHKIKEHN---AFPFQCEICHKIFTNKSTMWSHKKAHKP 196
G+ C++CG Q + H+ K A F CE C K F ++ +H+ P
Sbjct: 7 GLQCEICGFTCRQKASLNWHQRKHAETVAALRFPCEFCGKRFEKPDSVAAHRSKSHP 63
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 33.5 bits (75), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 26/63 (41%), Gaps = 4/63 (6%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPEDQIPWECEHCHKVYPNKRSYKRHKQVHLGVKHE 230
P++C ICH FT TM H E+ + C HC V K VHL +H
Sbjct: 15 PYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLG----VHLRKQHS 70
Query: 231 CEG 233
G
Sbjct: 71 YSG 73
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 33.5 bits (75), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 2/54 (3%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPEDQIPWECEHCHKVYPNKRSYKRHKQVH 224
PF C C K + + S + H++AH P C C K + ++ RH +VH
Sbjct: 4 PFFCNFCGKTYRDASGLSRHRRAH--LGYRPRSCPECGKCFRDQSEVNRHLKVH 55
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 25/51 (49%)
Query: 145 YCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAHK 195
+C+ CG+ + + ++ H+ P C C K F ++S + H K H+
Sbjct: 6 FCNFCGKTYRDASGLSRHRRAHLGYRPRSCPECGKCFRDQSEVNRHLKVHQ 56
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 33/89 (37%), Gaps = 2/89 (2%)
Query: 142 YGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQCEI--CHKIFTNKSTMWSHKKAHKPEDQ 199
Y C G+ F ++ H PF C C KIF + HK+ H E
Sbjct: 61 YWEECPREGKSFKAKYKLVNHIRVHTGEKPFPCPFPGCGKIFARSENLKIHKRTHTGEKP 120
Query: 200 IPWECEHCHKVYPNKRSYKRHKQVHLGVK 228
E E C + + N K+H VH K
Sbjct: 121 FKCEFEGCDRRFANSSDRKKHMHVHTSDK 149
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 23/47 (48%)
Query: 146 CDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKK 192
C+VC R F + + H N P+ C +C++ FT + + H +
Sbjct: 5 CEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHAQ 51
Score = 31.2 bits (69), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 172 FQCEICHKIFTNKSTMWSHKKAHKPEDQIPWECEHCHKVYPNKRSYKRHKQ-VHLG 226
F CE+C + F + + H ++H E P+ C C++ + + RH Q +H G
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSHTNEK--PYPCGLCNRAFTRRDLLIRHAQKIHSG 56
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 27/59 (45%), Gaps = 2/59 (3%)
Query: 86 SHVCDICLEAFPSSDDRDLHFLSHLTSDGLYQCNECEFVGKRLTHLKTH-KKIHEKVYG 143
S VC++C AF + H+ SH T++ Y C C R L H +KIH G
Sbjct: 2 SFVCEVCTRAFARQEHLKRHYRSH-TNEKPYPCGLCNRAFTRRDLLIRHAQKIHSGNLG 59
>pdb|1UN6|B Chain B, The Crystal Structure Of A Zinc Finger - Rna Complex
Reveals Two Modes Of Molecular Recognition
pdb|1UN6|C Chain C, The Crystal Structure Of A Zinc Finger - Rna Complex
Reveals Two Modes Of Molecular Recognition
pdb|1UN6|D Chain D, The Crystal Structure Of A Zinc Finger - Rna Complex
Reveals Two Modes Of Molecular Recognition
pdb|2HGH|A Chain A, Transcription Factor Iiia Zinc Fingers 4-6 Bound To 5s
Rrna 55mer (Nmr Structure)
Length = 87
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 31/56 (55%), Gaps = 2/56 (3%)
Query: 141 VYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQC--EICHKIFTNKSTMWSHKKAH 194
+Y + + CG+ F ++N++ +H+ P++C E C K F+ S + H+K H
Sbjct: 1 MYVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKVH 56
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 28/54 (51%), Gaps = 4/54 (7%)
Query: 175 EICHKIFTNKSTMWSHKKAHKPEDQIPWECEH--CHKVYPNKRSYKRHKQVHLG 226
E C K F + + H+ +H Q+P+EC H C K + KRH++VH G
Sbjct: 7 ENCGKAFKKHNQLKVHQFSH--TQQLPYECPHEGCDKRFSLPSRLKRHEKVHAG 58
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2 Domains
Of Human Zinc Finger Protein 297b
Length = 110
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 36/85 (42%), Gaps = 14/85 (16%)
Query: 108 SHLTSDGLYQCNECEFVGKRLTHLKT---HKKIHEKVYGVYCDVCGRGFHQNNEVTLHKI 164
S + D LY C GK TH H +H + C VCG+ F + + H +
Sbjct: 3 SGSSGDKLYPCQ----CGKSFTHKSQRDRHMSMHLGLRPYGCGVCGKKFKMKHHLVGH-M 57
Query: 165 KEHNAF-PFQCEICHKIFTNKSTMW 188
K H P++C IC K F MW
Sbjct: 58 KIHTGIKPYECNICAKRF-----MW 77
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 31/72 (43%), Gaps = 2/72 (2%)
Query: 149 CGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAHKPEDQIPWECEHCH 208
CG+ F ++ H P+ C +C K F K + H K H P+EC C
Sbjct: 15 CGKSFTHKSQRDRHMSMHLGLRPYGCGVCGKKFKMKHHLVGHMKIH--TGIKPYECNICA 72
Query: 209 KVYPNKRSYKRH 220
K + + S+ RH
Sbjct: 73 KRFMWRDSFHRH 84
>pdb|2J7J|A Chain A, Invariance Of The Zinc Finger Module: A Comparison Of The
Free Structure With Those In Nucleic-Acid Complexes
Length = 85
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 31/56 (55%), Gaps = 2/56 (3%)
Query: 141 VYGVYCDVCGRGFHQNNEVTLHKIKEHNAFPFQC--EICHKIFTNKSTMWSHKKAH 194
+Y + + CG+ F ++N++ +H+ P++C E C K F+ S + H+K H
Sbjct: 1 MYVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKVH 56
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 28/54 (51%), Gaps = 4/54 (7%)
Query: 175 EICHKIFTNKSTMWSHKKAHKPEDQIPWECEH--CHKVYPNKRSYKRHKQVHLG 226
E C K F + + H+ +H Q+P+EC H C K + KRH++VH G
Sbjct: 7 ENCGKAFKKHNQLKVHQFSH--TQQLPYECPHEGCDKRFSLPSRLKRHEKVHAG 58
>pdb|2LT7|A Chain A, Solution Nmr Structure Of Kaiso Zinc Finger Dna Binding
Domain In Complex With Kaiso Binding Site Dna
pdb|4F6M|A Chain A, Crystal Structure Of Kaiso Zinc Finger Dna Binding Domain
In Complex With Kaiso Binding Site Dna
pdb|4F6N|A Chain A, Crystal Structure Of Kaiso Zinc Finger Dna Binding Protein
In Complex With Methylated Cpg Site Dna
Length = 133
Score = 32.3 bits (72), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 36/91 (39%), Gaps = 2/91 (2%)
Query: 110 LTSDG--LYQCNECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLHKIKEH 167
L DG Y C C+ LT L+ H IH C C + F T H+I
Sbjct: 15 LIVDGRVYYICIVCKRSYVCLTSLRRHFNIHSWEKKYPCRYCEKVFPLAEYRTKHEIHHT 74
Query: 168 NAFPFQCEICHKIFTNKSTMWSHKKAHKPED 198
+QC C K F N M SH K+ +D
Sbjct: 75 GERRYQCLACGKSFINYQFMSSHIKSVHSQD 105
>pdb|3UK3|C Chain C, Crystal Structure Of Znf217 Bound To Dna
pdb|3UK3|D Chain D, Crystal Structure Of Znf217 Bound To Dna
pdb|4F2J|C Chain C, Crystal Structure Of Znf217 Bound To Dna, P6522 Crystal
Form
pdb|4IS1|C Chain C, Crystal Structure Of Znf217 Bound To Dna
pdb|4IS1|D Chain D, Crystal Structure Of Znf217 Bound To Dna
Length = 57
Score = 31.6 bits (70), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 83 DSTSHVCDICLEAFPSSDDRDLHFLSHLTSDGLYQCNECEFVGKRLTHLKTHKKIHEK 140
S+S C C + F S+ ++H +H T + Y+C CE+ + T L+ H + H K
Sbjct: 1 GSSSRECSYCGKFFRSNYYLNIHLRTH-TGEKPYKCEFCEYAAAQKTSLRYHLERHHK 57
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 22/49 (44%)
Query: 146 CDVCGRGFHQNNEVTLHKIKEHNAFPFQCEICHKIFTNKSTMWSHKKAH 194
C CG+ F N + +H P++CE C K+++ H + H
Sbjct: 7 CSYCGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERH 55
>pdb|2YTH|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
479- 511) Of Human Zinc Finger Protein 224
Length = 46
Score = 30.8 bits (68), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 17/27 (62%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPE 197
PFQCE C K FT S + SH++ H E
Sbjct: 12 PFQCEECGKRFTQNSHLHSHQRVHTGE 38
>pdb|2EP3|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
631- 663) Of Human Zinc Finger Protein 484
Length = 46
Score = 30.4 bits (67), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 19/27 (70%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPE 197
P++C C K FT++S +++H+K H E
Sbjct: 12 PYRCAECGKAFTDRSNLFTHQKIHTGE 38
>pdb|2EM3|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
640- 672) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPE 197
P++C++C K FT K+ + H+K H E
Sbjct: 12 PYECKVCSKAFTQKAHLAQHQKTHTGE 38
>pdb|2EN1|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
563- 595) Of Human Zinc Finger Protein 224
Length = 46
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPE 197
PF+CE C K FT S + SH++ H E
Sbjct: 12 PFKCEECGKRFTQNSQLHSHQRVHTGE 38
>pdb|2ENA|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
311- 343) Of Human Zinc Finger Protein 224
Length = 46
Score = 29.6 bits (65), Expect = 1.4, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPE 197
PF+C+ C K F +S + SH+ H E
Sbjct: 12 PFRCDTCDKSFRQRSALNSHRMIHTGE 38
>pdb|2EMH|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
491- 523) Of Human Zinc Finger Protein 484
Length = 46
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPE 197
P+ C +C K FT++S + H+K H E
Sbjct: 12 PYICTVCGKAFTDRSNLIKHQKIHTGE 38
>pdb|2EOX|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
315- 345) Of Human Zinc Finger Protein 473
Length = 44
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 116 YQCNECEFVGKRLTHLKTHKKIHEKVYG 143
Y CNEC R+ HL H+KIH + G
Sbjct: 13 YNCNECGKAFTRIFHLTRHQKIHTRKSG 40
>pdb|2EMX|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
273- 303) Of Human Zinc Finger Protein 268
Length = 44
Score = 29.3 bits (64), Expect = 2.1, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPE 197
PF C C K F++KS + H++ H E
Sbjct: 10 PFGCSCCEKAFSSKSYLLVHQQTHAEE 36
>pdb|1TF3|A Chain A, Tfiiia Finger 1-3 Bound To Dna, Nmr, 22 Structures
Length = 92
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 32/74 (43%), Gaps = 2/74 (2%)
Query: 149 CGRGFHQNNEVTLHKIKEHNAFPFQC--EICHKIFTNKSTMWSHKKAHKPEDQIPWECEH 206
CG +++N ++ H K PF C E C K FT+ + H H E + +
Sbjct: 11 CGAAYNKNWKLQAHLSKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTGEKNFTCDSDG 70
Query: 207 CHKVYPNKRSYKRH 220
C + K + K+H
Sbjct: 71 CDLRFTTKANMKKH 84
>pdb|2ENC|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
395- 427) Of Human Zinc Finger Protein 224
Length = 46
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPE 197
PF+CE C K F S +SH+++H E
Sbjct: 12 PFKCEECGKGFYTNSQCYSHQRSHSGE 38
>pdb|3MCW|A Chain A, Crystal Structure Of An A Putative Hydrolase Of The
Isochorismatase Family (Cv_1320) From Chromobacterium
Violaceum Atcc 12472 At 1.06 A Resolution
pdb|3MCW|B Chain B, Crystal Structure Of An A Putative Hydrolase Of The
Isochorismatase Family (Cv_1320) From Chromobacterium
Violaceum Atcc 12472 At 1.06 A Resolution
Length = 198
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 19/84 (22%), Positives = 36/84 (42%), Gaps = 5/84 (5%)
Query: 67 EDFINVNDFVSHLRGHDSTSHVCDICLEAFPSSDDRDLHFLSHLTSDGLYQCNECEFVGK 126
E + N ++ + STS+ + + +L F L DG + ++ ++ G+
Sbjct: 105 EALLRANGWLELVVAGVSTSNSVEATVRXA-----GNLGFAVCLAEDGCFTFDKTDWHGR 159
Query: 127 RLTHLKTHKKIHEKVYGVYCDVCG 150
R + + H + G YC VCG
Sbjct: 160 RRSADEVHAXSLANLDGEYCRVCG 183
>pdb|2EP0|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
528- 560) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 18/27 (66%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPE 197
P++C++CHK F S++ H++ H E
Sbjct: 12 PYKCDVCHKSFRYGSSLTVHQRIHTGE 38
>pdb|2EPU|A Chain A, Solution Structure Of The Secound C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 32
Length = 45
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 199 QIPWECEHCHKVYPNKRSYKRHKQVHLGVK 228
Q P+EC HC K + K + H+++H G K
Sbjct: 10 QKPFECTHCGKSFRAKGNLVTHQRIHTGEK 39
>pdb|2EP2|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
603- 635) Of Human Zinc Finger Protein 484
Length = 46
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPE 197
P++C IC K FT KS + H++ H E
Sbjct: 12 PYECSICGKSFTKKSQLHVHQQIHTGE 38
>pdb|1BBO|A Chain A, High-Resolution Solution Structure Of The Double Cys2His2
Zinc Finger From The Human Enhancer Binding Protein
Mbp-1
Length = 57
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 20/47 (42%)
Query: 116 YQCNECEFVGKRLTHLKTHKKIHEKVYGVYCDVCGRGFHQNNEVTLH 162
Y C EC K+ + LK H + H V +C C F +T H
Sbjct: 2 YICEECGIRXKKPSMLKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKH 48
>pdb|2ENH|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
556- 588) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 8/27 (29%), Positives = 19/27 (70%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPE 197
P++C++C K F++ +++ H++ H E
Sbjct: 12 PYECDVCRKAFSHHASLTQHQRVHSGE 38
>pdb|2EMF|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
379- 411) Of Human Zinc Finger Protein 484
Length = 46
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 172 FQCEICHKIFTNKSTMWSHKKAHKPE 197
F+C C K FT KST+ H+K H E
Sbjct: 13 FECTECGKAFTRKSTLSMHQKIHTGE 38
>pdb|2EOE|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
508- 540) Of Human Zinc Finger Protein 347
Length = 46
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 116 YQCNECEFVGKRLTHLKTHKKIHEKV 141
Y+CNEC V + +HL H++IH V
Sbjct: 13 YKCNECGKVFTQNSHLANHQRIHTGV 38
Score = 26.9 bits (58), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 201 PWECEHCHKVYPNKRSYKRHKQVHLGVK 228
P++C C KV+ H+++H GVK
Sbjct: 12 PYKCNECGKVFTQNSHLANHQRIHTGVK 39
>pdb|2EMG|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
463- 495) Of Human Zinc Finger Protein 484
Length = 46
Score = 28.1 bits (61), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPE 197
PF C C K+FT+K+ + H+K H E
Sbjct: 12 PFICSECGKVFTHKTNLIIHQKIHTGE 38
>pdb|2EM1|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
637- 667) Of Human Zinc Finger Protein 268
Length = 44
Score = 28.1 bits (61), Expect = 4.8, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 14/28 (50%)
Query: 201 PWECEHCHKVYPNKRSYKRHKQVHLGVK 228
P+ C C K + K HK VH GVK
Sbjct: 10 PYSCNECGKAFTFKSQLIVHKGVHTGVK 37
>pdb|2EL5|A Chain A, Solution Structure Of The 18th Zf-C2h2 Domain From Human
Zinc Finger Protein 268
Length = 42
Score = 28.1 bits (61), Expect = 4.8, Method: Composition-based stats.
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPE 197
P++C C K F K + SH++ H E
Sbjct: 10 PYECSECGKAFNRKDQLISHQRTHAGE 36
>pdb|2YTF|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
607- 639) Of Human Zinc Finger Protein 268
Length = 46
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPE 197
PF+C C K F KS + H++ H E
Sbjct: 12 PFECSECQKAFNTKSNLIVHQRTHTGE 38
>pdb|2EOF|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
411- 441) Of Human Zinc Finger Protein 268
Length = 44
Score = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPED 198
P++C C K F KS + H++ H E
Sbjct: 12 PYECNECQKAFNTKSNLMVHQRTHTGES 39
>pdb|2ELZ|A Chain A, Solution Structure Of The 17th Zf-C2h2 Domain From Human
Zinc Finger Protein 224
Length = 46
Score = 27.7 bits (60), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 201 PWECEHCHKVYPNKRSYKRHKQVHLGVK 228
P++CE C K Y + + H++VH+G K
Sbjct: 12 PYKCEDCGKGYNRRLNLDMHQRVHMGEK 39
>pdb|2YU8|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
648- 680) Of Human Zinc Finger Protein 347
Length = 46
Score = 27.7 bits (60), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 201 PWECEHCHKVYPNKRSYKRHKQVHLGVK 228
P++C C KV+ RH++VH G K
Sbjct: 12 PYKCNECGKVFTQNSHLARHRRVHTGGK 39
Score = 26.9 bits (58), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAH 194
P++C C K+FT S + H++ H
Sbjct: 12 PYKCNECGKVFTQNSHLARHRRVH 35
>pdb|2YTO|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (region
659- 691) Of Human Zinc Finger Protein 484
Length = 46
Score = 27.7 bits (60), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPE 197
P++C C K FT KS + H+++H E
Sbjct: 12 PYKCSDCGKAFTRKSGLHIHQQSHTGE 38
>pdb|2EMA|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
312- 344) Of Human Zinc Finger Protein 347
Length = 46
Score = 27.3 bits (59), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 116 YQCNECEFVGKRLTHLKTHKKIH 138
Y+CNEC V R + L H+KIH
Sbjct: 13 YKCNECGKVFSRNSQLSQHQKIH 35
>pdb|2LVT|A Chain A, Solution Structure Of Miz-1 Zinc Finger 9
Length = 29
Score = 27.3 bits (59), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPE 197
P QC +C K FT S++ +H + H E
Sbjct: 2 PCQCVMCGKAFTQASSLIAHVRQHTGE 28
>pdb|2EOJ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
355- 385) Of Human Zinc Finger Protein 268
Length = 44
Score = 27.3 bits (59), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAH 194
P++C C K+F+ K + SH+K H
Sbjct: 12 PYECCECGKVFSRKDQLVSHQKTH 35
>pdb|2EQ3|A Chain A, Solution Structure Of The 17th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 347
Length = 46
Score = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 201 PWECEHCHKVYPNKRSYKRHKQVHLGVK 228
P+EC C K + + S H+ +H G K
Sbjct: 12 PYECNQCGKAFSVRSSLTTHQAIHTGKK 39
>pdb|2EQ2|A Chain A, Solution Structure Of The 16th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 347
Length = 46
Score = 27.3 bits (59), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 201 PWECEHCHKVYPNKRSYKRHKQVHLGVK 228
P++C C K + RH++VH G K
Sbjct: 12 PYQCNECGKAFSQTSKLARHQRVHTGEK 39
>pdb|2EOQ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
283- 315) Of Human Zinc Finger Protein 224
Length = 46
Score = 27.3 bits (59), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPE 197
PF+C+IC K F +S + H H E
Sbjct: 12 PFKCDICGKSFCGRSRLNRHSMVHTAE 38
>pdb|2YU5|A Chain A, Solution Structure Of The Zf-C2h2 Domain (669-699aa) In
Zinc Finger Protein 473
Length = 44
Score = 27.3 bits (59), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 8/24 (33%), Positives = 16/24 (66%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAH 194
PF+C C ++FT ++ + H++ H
Sbjct: 12 PFKCSKCDRVFTQRNYLVQHERTH 35
>pdb|2EN6|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
887- 919) Of Human Zinc Finger Protein 268
Length = 46
Score = 26.9 bits (58), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 171 PFQCEICHKIFTNKSTMWSHKKAHKPE 197
P+ C C K F+ KS + +H++ H E
Sbjct: 12 PYGCNECGKTFSQKSILSAHQRTHTGE 38
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.324 0.138 0.455
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,897,043
Number of Sequences: 62578
Number of extensions: 285154
Number of successful extensions: 1470
Number of sequences better than 100.0: 111
Number of HSP's better than 100.0 without gapping: 103
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 989
Number of HSP's gapped (non-prelim): 392
length of query: 243
length of database: 14,973,337
effective HSP length: 96
effective length of query: 147
effective length of database: 8,965,849
effective search space: 1317979803
effective search space used: 1317979803
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 50 (23.9 bits)